COMBINE-lab / pufferfishLinks
An efficient index for the colored, compacted, de Bruijn graph
☆111Updated last year
Alternatives and similar repositories for pufferfish
Users that are interested in pufferfish are comparing it to the libraries listed below
Sorting:
- A repository for generating strobemers and evalaution☆79Updated last year
- Estimating k-mer coverage histogram of genomics data☆77Updated 2 years ago
- Kmer-db is a fast and memory-efficient tool for large-scale k-mer analyses (indexing, querying, estimating evolutionary relationships, et…☆97Updated 8 months ago
- BWT construction and search☆126Updated 3 weeks ago
- Building the compacted de Bruijn graph efficiently from references or reads.☆92Updated last week
- Squeakr: An Exact and Approximate k -mer Counting System☆86Updated 11 months ago
- Gfapy: a flexible and extensible software library for handling sequence graphs in Python☆71Updated 2 months ago
- GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/n…☆70Updated 3 years ago
- Adaptive semi-global banded alignment on string graphs☆66Updated 7 years ago
- alignment to variation graph inducer☆156Updated 3 weeks ago
- De novo genome assembly and multisample variant calling☆112Updated 6 years ago
- ⛓ Long Interval Nucleotide K-mer Scaffolder☆73Updated 10 months ago
- Assembled Genomes Compressor☆178Updated last year
- REINDEER REad Index for abuNDancE quERy☆56Updated 7 months ago
- seqfu - Sequece Fastx Utilities☆126Updated last week
- Creating alignment plots from bam files☆107Updated this week
- abPOA: an SIMD-based C library for fast partial order alignment using adaptive band☆134Updated 3 months ago
- Bidirectional WFA (Paper)☆48Updated last year
- compacted de Bruijn graph construction in low memory☆100Updated 3 months ago
- Error correction for Illumina RNA-seq reads☆67Updated last month
- Substring index for paths in a graph☆60Updated last week
- GenMap - Fast and Exact Computation of Genome Mappability☆114Updated last year
- Genome inference from a population reference graph☆96Updated 10 months ago
- Nucleotide Archival Format - Compressed file format for DNA/RNA/protein sequences☆63Updated 6 months ago
- A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment☆87Updated 4 years ago
- vcfdist: Accurately benchmarking phased variant calls☆84Updated 4 months ago
- deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads☆44Updated 3 years ago
- PacBio hybrid error correction through iterative short read consensus☆60Updated 6 years ago
- Core library of the Genome Analysis Toolbox with de-Bruijn graph☆65Updated last year
- Symmetric DUST for finding low-complexity regions in DNA sequences☆45Updated 6 months ago